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Effective protein representation learning is crucial for predicting protein functions. Traditional methods often pretrain protein language models on large, unlabeled amino acid sequences, followed by finetuning on labeled data. While…

Biomolecules · Quantitative Biology 2024-09-05 Jiangbin Zheng , Stan Z. Li

Although the self-supervised pre-training of transformer models has resulted in the revolutionizing of natural language processing (NLP) applications and the achievement of state-of-the-art results with regard to various benchmarks, this…

Computation and Language · Computer Science 2023-01-26 Xiang Chen , Xin Xie , Zhen Bi , Hongbin Ye , Shumin Deng , Ningyu Zhang , Huajun Chen

This paper presents a novel training method, Conditional Masked Language Modeling (CMLM), to effectively learn sentence representations on large scale unlabeled corpora. CMLM integrates sentence representation learning into MLM training by…

Computation and Language · Computer Science 2021-09-13 Ziyi Yang , Yinfei Yang , Daniel Cer , Jax Law , Eric Darve

Deep representations have shown promising performance when transferred to downstream tasks in a black-box manner. Yet, their inherent lack of interpretability remains a significant challenge, as these features are often opaque to human…

Machine Learning · Computer Science 2024-04-24 Yifei Wang , Qi Zhang , Yaoyu Guo , Yisen Wang

Contrastive learning is an efficient approach to self-supervised representation learning. Although recent studies have made progress in the theoretical understanding of contrastive learning, the investigation of how to characterize the…

Machine Learning · Computer Science 2023-08-21 Hiroki Waida , Yuichiro Wada , Léo Andéol , Takumi Nakagawa , Yuhui Zhang , Takafumi Kanamori

Large Language Models (LLMs) are powerful tools with profound societal impacts, yet their ability to generate responses to diverse and uncontrolled inputs leaves them vulnerable to adversarial attacks. While existing defenses often struggle…

Computation and Language · Computer Science 2025-12-30 Samuel Simko , Mrinmaya Sachan , Bernhard Schölkopf , Zhijing Jin

Neural Module Networks (NMN) are a compelling method for visual question answering, enabling the translation of a question into a program consisting of a series of reasoning sub-tasks that are sequentially executed on the image to produce…

Computation and Language · Computer Science 2023-10-25 Wafa Aissa , Marin Ferecatu , Michel Crucianu

Computational models are quantitative representations of systems. By analyzing and comparing the outputs of such models, it is possible to gain a better understanding of the system itself. Though as the complexity of model outputs…

Machine Learning · Computer Science 2022-12-13 Colin G. Cess , Stacey D. Finley

Deep learning has advanced NLP, but interpretability remains limited, especially in healthcare and finance. Concept bottleneck models tie predictions to human concepts in vision, but NLP versions either use binary activations that harm text…

Computation and Language · Computer Science 2026-03-31 Yibo Yang

Dynamical systems that evolve continuously over time are ubiquitous throughout science and engineering. Machine learning (ML) provides data-driven approaches to model and predict the dynamics of such systems. A core issue with this approach…

Machine Learning · Computer Science 2023-11-23 Aditi S. Krishnapriyan , Alejandro F. Queiruga , N. Benjamin Erichson , Michael W. Mahoney

We introduce a machine-learning (ML) framework for high-throughput benchmarking of diverse representations of chemical systems against datasets of materials and molecules. The guiding principle underlying the benchmarking approach is to…

Machine Learning · Computer Science 2021-12-07 Carl Poelking , Felix A. Faber , Bingqing Cheng

Deep learning techniques have been successfully used in learning a common representation for multi-view data, wherein the different modalities are projected onto a common subspace. In a broader perspective, the techniques used to…

Computer Vision and Pattern Recognition · Computer Science 2017-11-02 Gaurav Bhatt , Piyush Jha , Balasubramanian Raman

Concept-oriented deep learning (CODL) is a general approach to meet the future challenges for deep learning: (1) learning with little or no external supervision, (2) coping with test examples that come from a different distribution than the…

Machine Learning · Computer Science 2022-02-04 Daniel T. Chang

Identifying unique characteristics in a network through comparison with another network is an essential network analysis task. For example, with networks of protein interactions obtained from normal and cancer tissues, we can discover…

Machine Learning · Computer Science 2022-02-16 Takanori Fujiwara , Jian Zhao , Francine Chen , Yaoliang Yu , Kwan-Liu Ma

Model-agnostic meta-learning (MAML) is one of the most popular and widely adopted meta-learning algorithms, achieving remarkable success in various learning problems. Yet, with the unique design of nested inner-loop and outer-loop updates,…

Machine Learning · Computer Science 2022-03-15 Chia-Hsiang Kao , Wei-Chen Chiu , Pin-Yu Chen

DNN-based cross-modal retrieval has become a research hotspot, by which users can search results across various modalities like image and text. However, existing methods mainly focus on the pairwise correlation and reconstruction error of…

Machine Learning · Computer Science 2017-04-06 Xin Huang , Yuxin Peng

In object re-identification (ReID), the development of deep learning techniques often involves model updates and deployment. It is unbearable to re-embedding and re-index with the system suspended when deploying new models. Therefore,…

Computer Vision and Pattern Recognition · Computer Science 2023-03-10 Shengsen Wu , Liang Chen , Yihang Lou , Yan Bai , Tao Bai , Minghua Deng , Lingyu Duan

Continual Learning research typically focuses on tackling the phenomenon of catastrophic forgetting in neural networks. Catastrophic forgetting is associated with an abrupt loss of knowledge previously learned by a model when the task, or…

Machine Learning · Computer Science 2022-04-06 MohammadReza Davari , Nader Asadi , Sudhir Mudur , Rahaf Aljundi , Eugene Belilovsky

Contrastive learning is an approach to representation learning that utilizes naturally occurring similar and dissimilar pairs of data points to find useful embeddings of data. In the context of document classification under topic modeling…

Machine Learning · Computer Science 2020-03-05 Christopher Tosh , Akshay Krishnamurthy , Daniel Hsu

Contrastive Self-supervised Learning (CSL) is a practical solution that learns meaningful visual representations from massive data in an unsupervised approach. The ordinary CSL embeds the features extracted from neural networks onto…

Computer Vision and Pattern Recognition · Computer Science 2022-08-19 Shentong Mo , Zhun Sun , Chao Li
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